Recognition of the T stem-loop of a pre-tRNA substrate by the ribozyme from Bacillus subtilis ribonuclease P

Biochemistry
A Loria, T Pan

Abstract

The ribozyme from bacterial ribonuclease P (denoted P RNA) specifically recognizes the coaxially stacked T stem-loop and the acceptor stem of a tRNA substrate. This recognition is mediated primarily through tertiary interactions. At least four 2'-OH groups in the T stem-loop region have been implicated as direct contacts with Bacillus subtilis P RNA [Pan, T., et al. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 12510]. Effects of six single 2'-OH --> 2'-H substitutions and two base mutants of the G19-C56 tertiary interaction in tRNA on substrate binding (Kd) and the chemical step of the reaction (k2) have been determined using a tRNA(Phe) substrate containing a 2'-deoxy residue at the cleavage site. Our results show that at least five functional groups in the T stem-loop of tRNA directly participate in P RNA binding. They include the 2'-OH groups of residues 54, 56, 61, and 62 and possibly the 4-amino group of the conserved C56. The 2'-OHs of residues 54, 61, and 62 are positioned within the same minor groove due to stacking of the reverse Hoogsteen U54-A58 pair on the G53-C61 Watson-Crick pair in the T stem. This groove is extended to the 4-amino group of C56 through the tertiary structure of tRNA. We use the term "tertiary groove"...Continue Reading

References

Jan 1, 1993·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·S AltmanS Talbot

❮ Previous
Next ❯

Citations

Jun 17, 1999·FEMS Microbiology Reviews·A Schön
Jul 2, 2003·Current Opinion in Structural Biology·Michael E Harris, Eric L Christian
Nov 15, 2002·Methods : a Companion to Methods in Enzymology·Eric L ChristianMichael E Harris
Sep 28, 2000·Current Opinion in Chemical Biology·J C Kurz, C A Fierke
May 28, 2011·Accounts of Chemical Research·Kevin M Weeks, David M Mauger
Aug 23, 2005·Nature·Alfredo Torres-LariosAlfonso Mondragón
Sep 19, 2006·Nature Reviews. Microbiology·Alexei V Kazantsev, Norman R Pace
Sep 1, 2009·Proceedings of the National Academy of Sciences of the United States of America·Stefanie A Mortimer, Kevin M Weeks
Nov 24, 1998·Antisense & Nucleic Acid Drug Development·M Y MaS T George
Apr 7, 1999·Antisense & Nucleic Acid Drug Development·M WernerS T George
Oct 2, 2009·Nucleic Acids Research·Simona Cuzic-FeltensRoland K Hartmann
Aug 19, 2010·Nucleic Acids Research·Nayef Jarrous, Venkat Gopalan
Mar 26, 2010·BMC Bioinformatics·Feng-Jie Sun, Gustavo Caetano-Anollés
Jul 16, 2010·RNA·Olga Esakova, Andrey S Krasilnikov
Sep 1, 2004·RNA·Yong Li, Sidney Altman
Aug 10, 2006·Proceedings of the National Academy of Sciences of the United States of America·Fabiana RenziBeatrice Vallone
May 10, 2013·Annual Review of Biophysics·Alfonso Mondragón
Mar 1, 2003·Nature·Andrey S KrasilnikovAlfonso Mondragón

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.